Sciweavers

Share
BMCBI
2005

PentaPlot: A software tool for the illustration of genome mosaicism

8 years 11 months ago
PentaPlot: A software tool for the illustration of genome mosaicism
Background: Dekapentagonal maps depict the phylogenetic relationships of five genomes in a visually appealing diagram and can be viewed as an alternative to a single evolutionary consensus tree. In particular, the generated maps focus attention on those gene families that significantly deviate from the consensus or plurality phylogeny. PentaPlot is a software tool that computes such dekapentagonal maps given an appropriate probability support matrix. Results: The visualization with dekapentagonal maps critically depends on the optimal layout of unrooted tree topologies representing different evolutionary relationships among five organisms along the vertices of the dekapentagon. This is a difficult optimization problem given the large number of possible layouts. At its core our tool utilizes a genetic algorithm with demes and a local search strategy to search for the optimal layout. The hybrid genetic algorithm performs satisfactorily even in those cases where the chosen genomes are so...
Lutz Hamel, Olga Zhaxybayeva, J. Peter Gogarten
Added 15 Dec 2010
Updated 15 Dec 2010
Type Journal
Year 2005
Where BMCBI
Authors Lutz Hamel, Olga Zhaxybayeva, J. Peter Gogarten
Comments (0)
books